2de2: Difference between revisions

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[[Image:2de2.gif|left|200px]]


{{Structure
==Crystal structure of desulfurization enzyme DSZB==
|PDB= 2de2 |SIZE=350|CAPTION= <scene name='initialview01'>2de2</scene>, resolution 1.80&Aring;
<StructureSection load='2de2' size='340' side='right'caption='[[2de2]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND= <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene> and <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>
<table><tr><td colspan='2'>[[2de2]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhodococcus_sp._IGTS8 Rhodococcus sp. IGTS8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DE2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DE2 FirstGlance]. <br>
|ACTIVITY= [http://en.wikipedia.org/wiki/2'-hydroxybiphenyl-2-sulfinate_desulfinase 2'-hydroxybiphenyl-2-sulfinate desulfinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.13.1.3 3.13.1.3]  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8&#8491;</td></tr>
|GENE= DSZB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1831 Rhodococcus sp.])
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
}}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2de2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2de2 OCA], [https://pdbe.org/2de2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2de2 RCSB], [https://www.ebi.ac.uk/pdbsum/2de2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2de2 ProSAT]</span></td></tr>
 
</table>
'''Crystal structure of desulfurization enzyme DSZB'''
== Function ==
 
[https://www.uniprot.org/uniprot/DSZB_RHOSG DSZB_RHOSG] Catalyzes the third and final step of the '4S' desulfurization pathway that removes covalently bound sulfur from dibenzothiophene (DBT) without breaking carbon-carbon bonds. Oxidizes 2-(2'-hydroxyphenyl)benzene sulphinate (HBPS) to 2-hydroxybiphenyl (HBP) plus sulfite (PubMed:7961424, PubMed:7574582, PubMed:9634856, PubMed:9308179, PubMed:31545606). The rate-limiting step of the '4S' desulfurization pathway (PubMed:9308179, PubMed:31545606). The pathway substrate specificity has been augmented using mutagenesis, however no mutations allowed use of alkylated thiophenes (PubMed:11823208).<ref>PMID:11823208</ref> <ref>PMID:31545606</ref> <ref>PMID:7574582</ref> <ref>PMID:7961424</ref> <ref>PMID:9308179</ref> <ref>PMID:9634856</ref>
 
== Evolutionary Conservation ==
==About this Structure==
[[Image:Consurf_key_small.gif|200px|right]]
2DE2 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Rhodococcus_sp. Rhodococcus sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DE2 OCA].  
Check<jmol>
[[Category: 2'-hydroxybiphenyl-2-sulfinate desulfinase]]
  <jmolCheckbox>
[[Category: Rhodococcus sp.]]
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/de/2de2_consurf.spt"</scriptWhenChecked>
[[Category: Single protein]]
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
[[Category: Izumi, Y.]]
    <text>to colour the structure by Evolutionary Conservation</text>
[[Category: Lee, W C.]]
  </jmolCheckbox>
[[Category: Matsubara, T.]]
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2de2 ConSurf].
[[Category: Ohshiro, T.]]
<div style="clear:both"></div>
[[Category: Tanokura, M.]]
== References ==
[[Category: ACT]]
<references/>
[[Category: GOL]]
__TOC__
[[Category: alpha-beta]]
</StructureSection>
 
[[Category: Large Structures]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 16:26:07 2008''
[[Category: Rhodococcus sp. IGTS8]]
[[Category: Izumi Y]]
[[Category: Lee WC]]
[[Category: Matsubara T]]
[[Category: Ohshiro T]]
[[Category: Tanokura M]]

Latest revision as of 13:47, 13 March 2024

Crystal structure of desulfurization enzyme DSZB

2de2, resolution 1.80Å

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